Open Access Research article

Genome-wide SNP discovery in walnut with an AGSNP pipeline updated for SNP discovery in allogamous organisms

Frank M You12*, Karin R Deal1, Jirui Wang1, Monica T Britton3, Joseph N Fass3, Dawei Lin3, Abhaya M Dandekar1, Charles A Leslie1, Mallikarjuna Aradhya4, Ming-Cheng Luo1 and Jan Dvorak1*

Author Affiliations

1 Department of Plant Sciences, University of California, Davis, CA 95616, USA

2 Cereal Research Centre, Agriculture and Agri-Food Canada, Winnipeg, MB R3T 2M9, Canada

3 Genome Center Bioinformatics Core Facility, University of California, Davis, CA, 95616, USA

4 Germplasm Repository, USDA-ARS, Davis, CA, 95616, USA

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BMC Genomics 2012, 13:354  doi:10.1186/1471-2164-13-354

Published: 31 July 2012

Additional files

Additional file 1:

List of 6,000 SNPs used in the Infinium assay and their features.

Format: XLS Size: 1MB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 2:

List of the 13,439 discovered SNPs.

Format: XLS Size: 2.3MB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 3:

Sequences of 6,000 SNPs used in the Infinium assay.

Format: FASTA Size: 5.1MB Download file

Open Data

Additional file 4:

Sequences of discovered 13,439 SNPs.

Format: FASTA Size: 11.6MB Download file

Open Data